Concatenate videos

[thomas.p...@gmail.com]

Hi Daniel,

Is there a program or Matlab/Python code that you use to concatenate the avi files that the miniscope generates? Currently, I record 1000 frames until a new video is saved and I would like to concatenate them into one video. However, I tried ffmpeg as well as VLC player but either I'm losing frames or it doesn't work at all.

Do you have any suggestions how I could do this without frame loss?

Thanks!

Cheers,

Thomas

[Antonio Luis Florido]

Hi Thomas,

I typically use the concatenate tool from Fiji. It has been giving me good results.

Antonio Florido

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[Daniel Aharoni]

Hi,

imageJ can do this with compression codecs that are compatible with it. 

You can also check out our Python code here: https://github.com/Aharoni-Lab/Miniscope-v4/tree/master/Miniscope-v4-Denoising-Notebook. It is used to clean up some horizontal row noise in version 4.33 or lower of V4 Miniscope recordings but it is also able to change compression type and resave videos. Take a look at the last cell of this Jupiter Notebook, with some minor changes you can get it to re-save an entire recording into a single .avi file.

[Federico Sangiuliano]

Hello Thomas. You can use FIJI (or imageJ) to concatenate the videos. Once you load your videos, you can use the following:

Thank you

Federico

On Tuesday, March 16, 2021 at 12:21:46 PM UTC-7 thomas.p...@gmail.com wrote:

[thomas.p...@gmail.com]

Oh cool!

I didn't know. Thank you very much!

[Jason Biundo]

Hi Daniel,

Do you have any suggestions for how to alter the code to be able to save entire recording into a single .avi file? I am not familiar with the library you used to save the videos.

Thank you!

Jason 

[Daniel Aharoni]

Hi Jason,

You should be able to adjust the "framesPerFile" value in the user configuration file to change the number of frames saved per avi file. Make this some very large number and it will result in just a single avi file being saved to.